| localizer | ||||
|---|---|---|---|---|
| trial_type | coherent/down | coherent/up | incoherent/down | incoherent/up |
| subject | ||||
| 01 | 30 | 30 | 30 | 30 |
| 02 | 30 | 30 | 30 | 30 |
| 03 | 30 | 30 | 30 | 30 |
| 05 | 30 | 30 | 30 | 30 |
| 06 | 30 | 30 | 30 | 30 |
| 07 | 30 | 30 | 30 | 30 |
| 08 | 30 | 30 | 30 | 30 |
| 09 | 30 | 30 | 30 | 30 |
| 10 | 30 | 30 | 30 | 30 |
| 11 | 30 | 30 | 30 | 30 |
| 12 | 30 | 30 | 30 | 30 |
"""
hMT+ Localizer
"""
from mne_bids import get_entity_vals
study_name = 'ds003392'
bids_root = f'/storage/store2/data/{study_name}'
deriv_root = f'/storage/store2/derivatives/{study_name}/mne-bids-pipeline/'
subjects_dir = f'{bids_root}/derivatives/freesurfer/subjects'
# subjects = "all"
subjects = sorted(get_entity_vals(bids_root, entity_key='subject'))
exclude_subjects = ["06"] # projs were applied during acquisition...
# subjects = sorted(list(set(subjects) - set(exclude_subjects)))
# subjects = ['01']
N_JOBS = len(subjects)
# N_JOBS = 1
task = 'localizer'
find_flat_channels_meg = True
find_noisy_channels_meg = True
use_maxwell_filter = True
ch_types = ['meg']
l_freq = 1.
h_freq = 40.
resample_sfreq = 250
# Artifact correction.
spatial_filter = 'ica'
ica_max_iterations = 500
ica_l_freq = 1.
ica_n_components = 0.99
ica_reject_components = 'auto'
# Epochs
epochs_tmin = -0.2
epochs_tmax = 1.0
baseline = (None, 0)
# Conditions / events to consider when epoching
conditions = ['coherent', 'incoherent']
# Decoding
decode = True
contrasts = [('incoherent', 'coherent')]
# Noise estimation
process_er = True
noise_cov = 'emptyroom'
on_error = "debug"
Platform: Linux-4.15.0-136-generic-x86_64-with-glibc2.27
Python: 3.9.9 | packaged by conda-forge | (main, Dec 20 2021, 02:41:03) [GCC 9.4.0]
Executable: /data/parietal/store/work/agramfor/mambaforge/bin/python3.9
CPU: x86_64: 88 cores
Memory: 503.8 GB
mne: 1.1.1
numpy: 1.21.6 {blas=NO_ATLAS_INFO, lapack=lapack}
scipy: 1.8.1
matplotlib: 3.4.3 {backend=agg}
sklearn: 0.24.2
numba: 0.55.1
nibabel: 3.2.1
nilearn: Not found
dipy: Not found
cupy: Not found
pandas: 1.3.3
pyvista: 0.32.1 {OpenGL 3.3 (Core Profile) Mesa 20.0.8 via llvmpipe (LLVM 10.0.0, 256 bits)}
pyvistaqt: 0.5.0
ipyvtklink: Not found
vtk: 9.1.0
qtpy: 1.11.2 {PyQt5=5.12.9}
ipympl: Not found
pyqtgraph: Not found
pooch: v1.6.0
mne_bids: 0.11.dev0
mne_nirs: Not found
mne_features: Not found
mne_qt_browser: Not found
mne_connectivity: Not found
mne_icalabel: Not found